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High-dimensional supervised classification in a context of non-independence of observations to identify the determining SNPs in a phenotype

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Infectious Disease Modelling 2023年第4期8卷 1079-1087页

作者： Aboubacry gaye Abdou Ka Diongue Lionel Nanguep komen Amadou Diallo Seydou Nourou Sylla Maryam Diarra Cheikh Talla Cheikh Loucoubar Laboratory for Studies and Research in Statistics and Development Gaston Berger University of Saint LouisSenegal Epidemiology Clinical Research and Data Science UnitInstitute Pasteur de Dakar220DakarSenegal African Institute for Mathematical Sciences(AIMS) Senegal Information and Communication Technologies for Development Alioune Diop University of BambeySenegal

This work addresses the problem of supervised classification for highly correlated highdimensional data describing non-independent observations to identify SNPs related to a *** use a general penalized linear mixed model with a single random effect that performs simultaneous SNP selection and population structure adjustment in highdimensional prediction ***,the model simultaneously selects variables and estimates their effects,taking into account correlations between *** nucleotide polymorphisms(SNPs)are a type of genetic variation and each SNP represents a difference in a single DNA building block,namely a *** research has shown that SNPs can be used to identify the correct source population of an individual and can act in isolation or simultaneously to impact a *** this regard,the study of the contribution of genetics in infectious disease phenotypes is of great *** this study,we used uncorrelated variables from the construction of blocks of correlated variables done in a previous work to describe the most related observations of the *** model was trained with 90%of the observations and tested with the remaining 10%.The best model obtained with the generalized information criterion(gIC)identified the SNP named rs2493311 located on the first chromosome of the gene called PRDM16((PR/SET domain 16))as the most decisive factor in malaria attacks.

关键词： Non independence of observations Correlated variables High-dimensional supervised classification SNP Phenotype

饲养水平和遗传特性对XX;mas-1/mas-+鲤鱼(Cyprinus carpioL)性别决定的影响(英文)

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吉林农业大学学报 2002年第3期24卷 96-101页

作者：张东鸣 j.komen C.j.jRichter 陈颖吉林农业大学动物科技学院吉林长春130118 荷兰瓦赫宁根农业大学水产养殖系

饲养水平对E4×E5 (XX ;mas- +/mas- +×XX ;mas- 1/mas - 1)鲤鱼 (CyprinuscarpioL )F1代的性别决定有显著影响 ,高饲养水平和低饲养水平处理组中雌性比率分别为 5 1 5 %和 4 1%。遗传特性对E4 5×E5 (XX ;mas- 1/mas - +×XX ;mas- 1... 详细信息

饲养水平对E4×E5 (XX ;mas- +/mas- +×XX ;mas- 1/mas - 1)鲤鱼 (CyprinuscarpioL )F1代的性别决定有显著影响 ,高饲养水平和低饲养水平处理组中雌性比率分别为 5 1 5 %和 4 1%。遗传特性对E4 5×E5 (XX ;mas- 1/mas - +×XX ;mas- 1/mas- 1)F1代的影响比饲养水平的影响显著 ,在 2个处理组中只发现 1～ 2尾雌性。 2个饲养水平对E4×E4 5 (XX ;mas- +/mas- +×XX ;mas- 1/mas - +)F1代的影响差异显著 ,高饲养水平 2个处理组中雌性比率分别为 86 2 %和 76 8% ,而低饲养水平 2个处理组中雌性比率分别为 76 8%和 5 7 9% ,高饲养水平处理组的雌性比率与低饲养水平处理 1组 (雌性比率 5 7 9% )相比差异显著。 2个饲养水平条件下E4×E5和E4×E4 5后代的XX ;mas - 1/mas - +鲤鱼性别转化率之间没有显著差异。

关键词：饲养水平遗传特性鲤鱼性别决定

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NON-INVASIVE MEASUREMENT OF DEEP TISSUE TEMPERATURE CHANgES CAUSED BY APOPTOSIS DURINg BREAST CANCER NEOADjUVANT CHEMOTHERAPY:A CASE STUDY

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journal of Innovative Optical Health Sciences 2011年第4期4卷 361-372页

作者： SO HYUN CHUNg RITA MEHTA BRUCE j.TROMBERg A.g.YODH Department of Physics and Astronomy University of Pennsylvania 209 S.33rd StPhiladelphiaPA 19104USA Department of Medicine UC Irvine Healthcare 101 The City Drive SouthOrangeCA 92868USA Beckman Laser Institute Department of Biomedical Engineering University of CaliforniaIrvine1002 Health Sciences Rd IrvineCA 92612USA

Treatment-induced apoptosis of cancer cells is one goal of cancer ***,more heat is generated by mitochondria during apoptosis,especially the uncoupled apoptotic state,^(1,2) compared to the resting *** this case study,we explore these thermal effects by longitudinally measuring temperature variations in a breast lesion of a pathological complete responder during neoadjuvant chemotherapy(NAC).Diffuse Optical Spectroscopic Imaging(DOSI)was employed to derive absolute deep tissue temperature using subtle spectral features of the water peak at 975 nm.^(3)A significant temperature increase was observed in time windows during the anthracycline and cyclophosphamide(AC)regimen but not in the paclitaxel and bevacizumab *** concentration changes generally did not follow temperature,suggesting the measured temperature increases were likely due to mitochondrial uncoupling rather than a direct vascular effect.A simultaneous increase of tissue oxygen saturation with temperature was observed,suggesting that oxidative stress also contributes to *** preliminary,this study indicates longitudinal DOSI tissue temperature monitoring provides information that can improve our understanding of the mechanisms of tissue response during NAC.

关键词： Deep tissue temperature Diffuse Optical Spectroscopic Imaging apoptosis neoadjuvant chemotherapy breast cancer Bound Water Index NIR water absorption spectrum

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建立以人为本的科研资助体系

中国战略新兴产业 2018年第29期 95-95页

作者：王小凡 Susan g.komen 张赟中国科学院美国麻省理工学院怀特海德研究所

目前,中国对科研事业的投入总量持续增长,但重物轻人的资助倾向尚未根本改变,以具体项目为基础的资助方式仍占绝大多数。由于科学研究、技术创新、重大工程各有不同的发展规律,目前单一的资助模式在很多领域并不利于发展原创性、前沿性... 详细信息

目前,中国对科研事业的投入总量持续增长,但重物轻人的资助倾向尚未根本改变,以具体项目为基础的资助方式仍占绝大多数。由于科学研究、技术创新、重大工程各有不同的发展规律,目前单一的资助模式在很多领域并不利于发展原创性、前沿性的研究。

关键词：科研资助人才队伍建设研发经费欠发达地区

Anti-HER-2 therapy following severe trastuzumab-induced cardiac toxicity

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genes & Diseases 2017年第3期4卷 159-162页

作者： Ibrahim Sadek Mark Keaton Nita j.Maihle Shou-Ching Tang georgia Cancer Center Medical College of GeorgiaAugusta UniversityAugustaGA 30912USA Tianjin Medical University Cancer Institute and Hospital Huanhuxi RoadHexi DistrictTianjin 300060China

The human epidermal growth factor receptor 2(HER2)is overexpressed in 25%e30%of breast cancer ***-HER2 therapies have changed the aggressive course of HER2t breast *** spite of the therapeutic benefits,their cardiotoxicities are major concerns,especially when used concurrently with *** we present an elderly patient with relapsed HER2t breast *** presentation for relapsed disease was unusual for the physical finding as well as the history of trastuzumabinduced severe cardiotoxicity while requiring additional anti-HER2 *** received neoadjuvant anti-HER2 treatment for stage III breast *** to severe reduction of cardiac ejection fraction(EF),she only received five doses of adjuvant *** her disease relapsed one year later with chest wall lesions and a persistent low *** treated the patient with lapatinib combined with capecitabine which resulted rapid resolution of her chest wall *** importantly,the patient had one year of disease control without deterioration in her ejection *** discussed the management of recurrent HER2t breast cancer with chest wall disease and the choice of anti-HER2 therapy in patients with a history of transtuzumab-induced cardiac dysfunction.

关键词： Diagnosis and management HER2 positive breast cancer Lapatinib Trastuzumab-induced cardiac toxicity Unusual presentation

ESR1 alterations and metastasis in estrogen receptor positive breast cancer

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journal of Cancer Metastasis and Treatment 2019年第5期4卷 16-31页

作者： jonathan T.Lei Xuxu gou Sinem Seker Matthew j.Ellis Interdepartmental graduate Program in Translational Biology&Molecular Medicine Baylor College of MedicineHoustonTX 77030USA Lester and Sue Smith Breast Center Baylor College of MedicineHoustonTX 77030USA Departments of Medicine and Molecular and Cellular Biology Baylor College of MedicineHoustonTX 77030USA

Endocrine therapy is essential for the treatment of patients with estrogen receptor positive (ER+) breast cancer, however, resistance and the development of metastatic disease is common. Understanding how ER+ breast cancer metastasizes is critical since the major cause of death in breast cancer is metastasis to distant organs. Results from many studies suggest dysregulation of the estrogen receptor alpha gene (ESR1) contributes to therapeutic resistance and metastatic biology. This review covers both pre-clinical and clinical evidence on the spectrum ofESR1 alterations including amplification, point mutations, and genomic rearrangement events driving treatment resistance and metastatic potential of ER+ breast cancer. Importantly, we describe how these ESR1 alterations may provide therapeutic opportunities to improve outcomes in patients with lethal, metastatic breast cancer.

关键词： Endocrine therapy resistance ESR1 fusions ESR1 mutations breast cancer metastasis

Pre-osteoblastic MC3T3-E1 cells promote breast cancer growth in bone in a murine xenograft model

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Chinese journal of Cancer 2011年第3期30卷 189-196页

作者： Thomas M. Bodenstine Benjamin H. Beck Xuemei Cao Leah M. Cook Aimen Ismail j. Kent Powers Andrea M. Mastro Danny R. Welch Department of Pathology University of Alabama at Birmingham Birmingham AL 35294 USA National Foundation for Cancer Research-Center for Metastasis Research University of Alabama at Birmingham Birmingham AL 35294 USA Department of Biochemistry and Molecular Biology Pennsylvania State University University Park PA 16802 USA Department of Pharmacology/ Toxicology University of Alabama at Birmingham Birmingham AL 35294 USA Cell Biology University of Alabama at Birmingham Birmingham AL 35294 USA Comprehensive Cancer Center University of Alabama at Birmingham Birmingham AL 35294 USA Center for Metabolic Bone Disease University of Alabama at Birmingham Birmingham AL 35294 USA.

The bones are the most common sites of breast cancer metastasis. Upon arrival within the bone microenvironment, breast cancer cells coordinate the activities of stromal cells, resulting in an increase in osteoclast activity and bone matrix degradation. In late stages of bone metastasis, breast cancer cells induce apoptosis in osteoblasts, which further exacerbates bone loss. However, in early stages, breast cancer cells induce osteoblasts to secrete inflammatory cytokines purported to drive tumor progression. To more thoroughly evaluate the role of osteoblasts in early stages of breast cancer metastasis to the bones, we used green fluorescent protein-labeled human breast cancer cell lines MDA-MB-231 and MDA-MB-435, which both induce osteolysis after intra-femoral injection in athymic mice, and the murine pre-osteoblastic cell line MC3T3-E1 to modulate osteoblast populations at the sites of breast cancer metastasis. Breast cancer cells were injected directly into the femur with or without equal numbers of MC3T3-E1 cells. Tumors grew significantly larger when co-injected with breast cancer cells and MC3T3-E1 cells than injected with breast cancer cells alone. Osteolysis was induced in both groups, indicating that MC3T3-E1 cells did not block the ability of breast cancer cells to cause bone destruction. MC3T3-E1 cells promoted tumor growth out of the bone into the extraosseous stroma. These data suggest that breast cancer cells and osteoblasts communicate during early stages of bone metastasis and promote tumor growth.

关键词：乳腺癌细胞成骨细胞肿瘤生长小鼠绿色荧光蛋白标记模型移植早期阶段

维普期刊数据库